Posted by
Christian Goosmann-2 on
URL: http://imagej.273.s1.nabble.com/TrakEM-question-tp5020256p5020266.html
Hi Kenneth
did you think of exporting your region of interest from trackEM. Draw a
rectangle anywhere in the display, right click choosing 'export' and
'make flat image'. A dialog opens where you can specify which range of
slices or "z-positions" you want. It either generates a stack as an open
document or writes one to the disk, you choose.
hth
Christian
---
Christian Goosmann
Mikroskopie
Max-Planck-Institut für Infektionsbiologie
Campus Charité Mitte
Charitéplatz 1
10117 Berlin
Tel.: +49 30 28460 388
On 10.03.2018 15:20, Kenneth Sloan wrote:
> We are using TrakEM to look at a stack of EM images. It works great!
>
> But, we would like to generate orthogonal views of the stack of images.
>
> I am, alas, completely ignorant of how TrakEM manages the images (multiple tiles, multiple slices).
>
> It seems clear that the image displayed by ImageJ is not a "stack" as far as ImageJ is concerned.
> Any attempt to select that window and apply any Stack command fails miserably ("must be a stack").
> I didn't really think that would work, but I tried it.
>
> So...is there a way to produce a (perhaps low resolution, perhaps a limited "brick") stack that can be treated as a normal ImageJ stack of images, so that we could use (for example) "Orthogonal Views").
>
> I expect this will be expensive. The data set is 10-20TB. So, the key is probably "lower resolution or restricted region in x,y,z"
>
> --
> Kenneth Sloan
>
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> Vision is the art of seeing what is invisible to others.
>
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